Advanced matrix-analytic methods with applications. Over the last twenty-five years, matrix-analytic methods have proved to be very successful in formulating and analysing certain classes of stochastic models. Motivated by applications, this project will investigate more advanced matrix-analytic methods than have hitherto been studied.
Creating new stochastic models to understand the evolution of gene families. This project aims to extend stochastic modelling techniques in order to develop mathematically rigorous and biologically relevant models for the evolution of gene families. The project expects to model evolutionary processes such as gene retention, duplication and loss, and the generation of new gene functions. The duplication and subsequent re-purposing of genes is thought to be a key mechanism for generating evolution ....Creating new stochastic models to understand the evolution of gene families. This project aims to extend stochastic modelling techniques in order to develop mathematically rigorous and biologically relevant models for the evolution of gene families. The project expects to model evolutionary processes such as gene retention, duplication and loss, and the generation of new gene functions. The duplication and subsequent re-purposing of genes is thought to be a key mechanism for generating evolutionary novelty. By applying these models to genome data, the project expects to be able to quantify the importance of these different evolutionary mechanisms. The project will strengthen collaborative links between researchers in stochastic modelling and molecular evolutionary biology.Read moreRead less
An efficient approach to the computation of bacterial evolutionary distance. This project aims to apply advanced mathematical tools to improve our understanding of bacterial evolution. Bacteria account for as much total Earth biomass as all plant species put together, and have an unparalleled ability to evolve quickly and adapt to changing environments. Unfortunately, the existing mathematical models used to model bacterial evolution are generally computationally intractable. This project will r ....An efficient approach to the computation of bacterial evolutionary distance. This project aims to apply advanced mathematical tools to improve our understanding of bacterial evolution. Bacteria account for as much total Earth biomass as all plant species put together, and have an unparalleled ability to evolve quickly and adapt to changing environments. Unfortunately, the existing mathematical models used to model bacterial evolution are generally computationally intractable. This project will rectify this situation by using representation theory to transform combinatorial group theory into linear algebra, allowing for the application of advanced methods of numeric approximation. This will provide a better understanding of how bacteria evolve and improve our ability to manage their impact.Read moreRead less
Viscous Effects in Free-Surface Flows. Australia has a proud record of achievement in the field of free-surface fluid mechanics. This project will build and extend these research achievements. It will provide new information about how fluid layers overturn and mix, which is an important process in oceanography. It will examine the sloshing behaviour of fluid in moving storage tanks, which is important in fuel transport and building design. The project will develop new mathematical methods fo ....Viscous Effects in Free-Surface Flows. Australia has a proud record of achievement in the field of free-surface fluid mechanics. This project will build and extend these research achievements. It will provide new information about how fluid layers overturn and mix, which is an important process in oceanography. It will examine the sloshing behaviour of fluid in moving storage tanks, which is important in fuel transport and building design. The project will develop new mathematical methods for solving these problems accurately, and will contribute to the next generation of research mathematicians in Australia. Read moreRead less
Structure and informatics of the genetic code. Recent advances in biotechnology have seen its emergence as a highly
quantitative, numerically-based discipline. To exploit the available
data to the full will require, alongside computing power, new
analytical techniques. This project aims to develop such techniques,
by handling the systematics of the genetic code with methods derived
from theoretical physics and chemistry. Expected outcomes include a
dynamical (quantum field theory) model ....Structure and informatics of the genetic code. Recent advances in biotechnology have seen its emergence as a highly
quantitative, numerically-based discipline. To exploit the available
data to the full will require, alongside computing power, new
analytical techniques. This project aims to develop such techniques,
by handling the systematics of the genetic code with methods derived
from theoretical physics and chemistry. Expected outcomes include a
dynamical (quantum field theory) model of phylogenetic branching,
analyses of nucleic acid structure and content (spin chain models of
RNA binding and of DNA open reading frames), and insights into the
origin of the code itself (via numerical codon similarity measures).
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Markov invariants and phylogenetic tree reconstruction. The project will assist Australia to progress as an innovator in the production phylogenetic tree reconstruction techniques.
Identifying species is a difficult task with environmental, social and economic benefits to Australia. DNA evidence and phylogenetic methods clearly achieve this task. Conservation of rare species depends upon identification and hence robust phylogenetic analysis. Phylogenetically identifying fish species has econom ....Markov invariants and phylogenetic tree reconstruction. The project will assist Australia to progress as an innovator in the production phylogenetic tree reconstruction techniques.
Identifying species is a difficult task with environmental, social and economic benefits to Australia. DNA evidence and phylogenetic methods clearly achieve this task. Conservation of rare species depends upon identification and hence robust phylogenetic analysis. Phylogenetically identifying fish species has economic importance as different fish species are all managed separately, having different catch limits, catch areas and market values. Using effective phylogenetic methods, epidemiologists can track the spread of a disease through a population. Read moreRead less
Managing Fresh-Water Resources in Saline Environments. Australian industry and urban developments often rely on a secure supply of fresh water. In many situations, the fresh water occurs adjacent to large expanses of saline water. This poses special constraints on how the fresh water can be recovered. This project undertakes careful mathematical modelling of fresh water recovery from reservoirs and from within islands (where it may be the only practical source of drinking water). The injecti ....Managing Fresh-Water Resources in Saline Environments. Australian industry and urban developments often rely on a secure supply of fresh water. In many situations, the fresh water occurs adjacent to large expanses of saline water. This poses special constraints on how the fresh water can be recovered. This project undertakes careful mathematical modelling of fresh water recovery from reservoirs and from within islands (where it may be the only practical source of drinking water). The injection and extraction of ground water in novel "mineral leaching" mining technology will also be investigated.Read moreRead less
Algebraically informed models of biological sequence evolution. To make sense of the patterns they see in the natural world, biologists across fields as diverse as genetics, epidemiology and biogeography need an accurate picture of evolutionary history. DNA sequences provide an exciting means to establish this picture of the past, but to decode it successfully requires mathematical models of how DNA evolves. Mathematical inconsistencies have been identified with current approaches. In particular ....Algebraically informed models of biological sequence evolution. To make sense of the patterns they see in the natural world, biologists across fields as diverse as genetics, epidemiology and biogeography need an accurate picture of evolutionary history. DNA sequences provide an exciting means to establish this picture of the past, but to decode it successfully requires mathematical models of how DNA evolves. Mathematical inconsistencies have been identified with current approaches. In particular, understanding the effect of natural selection in different parts of the tree of life requires models that behave robustly in the face of shifting evolutionary processes. This project aims to use insights from algebraic methods to construct mathematically consistent models of wide biological utility.Read moreRead less
Managing infectious disease through partial wildlife social networks. This project aims to investigate the dynamics of the spread of infectious disease in wildlife, derived from incomplete information about contact networks. Infectious diseases in wildlife are difficult to track and control, because it is not feasible to monitor each individual in a population and know the contact network for a population. The project will create ways to best utilise incomplete observational data of contact netw ....Managing infectious disease through partial wildlife social networks. This project aims to investigate the dynamics of the spread of infectious disease in wildlife, derived from incomplete information about contact networks. Infectious diseases in wildlife are difficult to track and control, because it is not feasible to monitor each individual in a population and know the contact network for a population. The project will create ways to best utilise incomplete observational data of contact networks to develop robust predictions of disease spread and population fate, and to reliably predict the outcomes of management interventions. These robust prediction methods will provide better insights for conservation of Australian wildlife.Read moreRead less
Outflows, Jets and Plumes. This project studies how fluid flows out from a small concentrated object into a second surrounding fluid. New solution methods will be provided, and new results about how these fluid flows evolve will be obtained. These are important problems with significance in modelling underwater explosions. They are also important in astrophysics, and will help explain the shapes of outflows from some stars or galaxies. The outcomes of the project will be a deeper mathematical un ....Outflows, Jets and Plumes. This project studies how fluid flows out from a small concentrated object into a second surrounding fluid. New solution methods will be provided, and new results about how these fluid flows evolve will be obtained. These are important problems with significance in modelling underwater explosions. They are also important in astrophysics, and will help explain the shapes of outflows from some stars or galaxies. The outcomes of the project will be a deeper mathematical understanding of which outflow shapes are stable, and under what circumstances they might become unstable. This will provide valuable information about galaxy shapes, and a new suite of computational methods for solving such problems.Read moreRead less